X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 291.0
Details 0.1M MES PH6.5, 20-23% PEG 4000, HANGING DROP, VAPOUR DIFFUSION, 291 K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 49.14 α = 90
b = 52.25 β = 93.35
c = 52.53 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS DYNAMICALLY BENDABLE MIRROR 2013-02-05
Diffraction Radiation
Monochromator Protocol
LN2 COOLED FIXED-EXIT SI(111) MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA -- SLS X06SA

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.08 37.01 91.2 0.06 -- -- 3.09 -- 103504 -- -3.0 6.95
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.08 1.12 47.2 0.24 -- 3.77 1.85 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
SAD 1.081 37.014 -- 1.11 -- 103501 8867 79.77 -- 0.1274 0.1264 0.1465 --
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.0808 1.0931 -- 64 1349 0.2207 0.3021 -- 19.0
X Ray Diffraction 1.0931 1.106 -- 134 2726 0.2082 0.217 -- 39.0
X Ray Diffraction 1.106 1.1194 -- 168 3113 0.1862 0.1794 -- 44.0
X Ray Diffraction 1.1194 1.1336 -- 188 3671 0.1703 0.1783 -- 52.0
X Ray Diffraction 1.1336 1.1485 -- 193 4151 0.1587 0.1662 -- 58.0
X Ray Diffraction 1.1485 1.1643 -- 257 4645 0.1518 0.1787 -- 65.0
X Ray Diffraction 1.1643 1.1809 -- 284 5077 0.1505 0.1552 -- 73.0
X Ray Diffraction 1.1809 1.1985 -- 330 5755 0.152 0.1779 -- 81.0
X Ray Diffraction 1.1985 1.2173 -- 342 5912 0.1388 0.1605 -- 84.0
X Ray Diffraction 1.2173 1.2372 -- 299 6033 0.1394 0.1716 -- 85.0
X Ray Diffraction 1.2372 1.2586 -- 355 6061 0.1397 0.1621 -- 85.0
X Ray Diffraction 1.2586 1.2814 -- 332 6046 0.1348 0.163 -- 86.0
X Ray Diffraction 1.2814 1.3061 -- 305 5948 0.1337 0.1574 -- 85.0
X Ray Diffraction 1.3061 1.3328 -- 306 6044 0.1289 0.1553 -- 85.0
X Ray Diffraction 1.3328 1.3617 -- 356 6232 0.1239 0.1564 -- 88.0
X Ray Diffraction 1.3617 1.3934 -- 340 6244 0.1221 0.1557 -- 88.0
X Ray Diffraction 1.3934 1.4283 -- 331 6222 0.1187 0.1574 -- 89.0
X Ray Diffraction 1.4283 1.4669 -- 343 6220 0.1114 0.1535 -- 89.0
X Ray Diffraction 1.4669 1.51 -- 341 6265 0.1071 0.1347 -- 88.0
X Ray Diffraction 1.51 1.5588 -- 307 6200 0.1076 0.1382 -- 88.0
X Ray Diffraction 1.5588 1.6145 -- 332 6430 0.1071 0.1432 -- 91.0
X Ray Diffraction 1.6145 1.6791 -- 308 6482 0.1085 0.1346 -- 91.0
X Ray Diffraction 1.6791 1.7556 -- 338 6510 0.1151 0.1201 -- 92.0
X Ray Diffraction 1.7556 1.8481 -- 355 6450 0.1186 0.1441 -- 92.0
X Ray Diffraction 1.8481 1.9639 -- 294 6417 0.1222 0.1254 -- 90.0
X Ray Diffraction 1.9639 2.1155 -- 328 6729 0.1142 0.1208 -- 94.0
X Ray Diffraction 2.1155 2.3284 -- 376 6604 0.1218 0.1419 -- 94.0
X Ray Diffraction 2.3284 2.6652 -- 316 6571 0.1326 0.1541 -- 93.0
X Ray Diffraction 2.6652 3.3575 -- 314 6665 0.1294 0.1386 -- 94.0
X Ray Diffraction 3.3575 37.0359 -- 331 6571 0.1278 0.1449 -- 93.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 11.7
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.01
f_angle_d 1.448
f_plane_restr 0.008
f_chiral_restr 0.088
f_dihedral_angle_d 12.246
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2501
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 611

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE: DEV_1358)
XDS data reduction
XDS phasing
HKL2MAP phasing
PHENIX phasing